=> Building misc/snakemake Started : Friday, 8 MAR 2019 at 00:48:16 UTC Platform: 5.5-DEVELOPMENT DragonFly v5.5.0.192.g15ae7f0-DEVELOPMENT #34: Tue Feb 19 09:07:07 PST 2019 root@pkgbox64.dragonflybsd.org:/usr/obj/usr/src/sys/X86_64_GENERIC x86_64 -------------------------------------------------- -- Environment -------------------------------------------------- UNAME_r=5.5-SYNTH UNAME_m=x86_64 UNAME_p=x86_64 UNAME_v=DragonFly 5.5-SYNTH UNAME_s=DragonFly PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SSL_NO_VERIFY_PEER=1 TERM=dumb PKG_CACHEDIR=/var/cache/pkg8 PKG_DBDIR=/var/db/pkg8 PORTSDIR=/xports LANG=C HOME=/root USER=root -------------------------------------------------- -- Options -------------------------------------------------- -------------------------------------------------- -- CONFIGURE_ENV -------------------------------------------------- PYTHON="/usr/local/bin/python3.6" XDG_DATA_HOME=/construction/misc/snakemake XDG_CONFIG_HOME=/construction/misc/snakemake HOME=/construction/misc/snakemake TMPDIR="/tmp" PATH=/construction/misc/snakemake/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc80 -------------------------------------------------- -- CONFIGURE_ARGS -------------------------------------------------- -------------------------------------------------- -- MAKE_ENV -------------------------------------------------- XDG_DATA_HOME=/construction/misc/snakemake XDG_CONFIG_HOME=/construction/misc/snakemake HOME=/construction/misc/snakemake TMPDIR="/tmp" PATH=/construction/misc/snakemake/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES CCVER=gcc80 LDSHARED="cc -shared" PYTHONDONTWRITEBYTECODE= PYTHONOPTIMIZE= PREFIX=/usr/local LOCALBASE=/usr/local NOPROFILE=1 CC="cc" CFLAGS="-pipe -O2 -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" " LIBS="" CXX="c++" CXXFLAGS=" -pipe -O2 -fno-strict-aliasing " MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" -------------------------------------------------- -- MAKE_ARGS -------------------------------------------------- DESTDIR=/construction/misc/snakemake/stage -------------------------------------------------- -- PLIST_SUB -------------------------------------------------- PYTHON_INCLUDEDIR=include/python3.6m PYTHON_LIBDIR=lib/python3.6 PYTHON_PLATFORM=dragonfly5 PYTHON_PYOEXTENSION=opt-1.pyc PYTHON_SITELIBDIR=lib/python3.6/site-packages PYTHON_SUFFIX=36 PYTHON_VER=3.6 PYTHON_VERSION=python3.6 PYTHON2="@comment " PYTHON3="" OSREL=5.5 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PROFILE="@comment " DOCSDIR="share/doc/snakemake" EXAMPLESDIR="share/examples/snakemake" DATADIR="share/snakemake" WWWDIR="www/snakemake" ETCDIR="etc/snakemake" -------------------------------------------------- -- SUB_LIST -------------------------------------------------- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/snakemake DOCSDIR=/usr/local/share/doc/snakemake EXAMPLESDIR=/usr/local/share/examples/snakemake WWWDIR=/usr/local/www/snakemake ETCDIR=/usr/local/etc/snakemake -------------------------------------------------- -- /etc/make.conf -------------------------------------------------- SYNTHPROFILE=Release-BE USE_PACKAGE_DEPENDS_ONLY=yes PACKAGE_BUILDING=yes BATCH=yes PKG_CREATE_VERBOSE=yes PORTSDIR=/xports DISTDIR=/distfiles WRKDIRPREFIX=/construction PORT_DBDIR=/options PACKAGES=/packages MAKE_JOBS_NUMBER_LIMIT=5 LICENSES_ACCEPTED= NONE HAVE_COMPAT_IA32_KERN= CONFIGURE_MAX_CMD_LEN=262144 _PERL5_FROM_BIN=5.28.1 _ALTCCVERSION_921dbbb2=none _OBJC_ALTCCVERSION_921dbbb2=none _SMP_CPUS=8 UID=0 ARCH=x86_64 OPSYS=DragonFly DFLYVERSION=500500 OSVERSION=9999999 OSREL=5.5 _OSRELEASE=5.5-SYNTH PYTHONBASE=/usr/local _PKG_CHECKED=1 -------------------------------------------------------------------------------- -- Phase: check-sanity -------------------------------------------------------------------------------- ===> License MIT accepted by the user -------------------------------------------------------------------------------- -- Phase: pkg-depends -------------------------------------------------------------------------------- ===> snakemake-5.4.2 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.10.5_5.txz Installing pkg-1.10.5_5... Extracting pkg-1.10.5_5: .......... done ===> snakemake-5.4.2 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of snakemake-5.4.2 -------------------------------------------------------------------------------- -- Phase: fetch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: fetch -------------------------------------------------------------------------------- ===> License MIT accepted by the user => snakemake-5.4.2.tar.gz doesn't seem to exist in /distfiles/. => Attempting to fetch https://files.pythonhosted.org/packages/source/s/snakemake/snakemake-5.4.2.tar.gz snakemake-5.4.2.tar.gz 167 kB 0 Bps ===> Fetching all distfiles required by snakemake-5.4.2 for building -------------------------------------------------------------------------------- -- Phase: checksum -------------------------------------------------------------------------------- ===> License MIT accepted by the user ===> Fetching all distfiles required by snakemake-5.4.2 for building => SHA256 Checksum OK for snakemake-5.4.2.tar.gz. -------------------------------------------------------------------------------- -- Phase: extract-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: extract -------------------------------------------------------------------------------- ===> License MIT accepted by the user ===> Fetching all distfiles required by snakemake-5.4.2 for building ===> Extracting for snakemake-5.4.2 => SHA256 Checksum OK for snakemake-5.4.2.tar.gz. -------------------------------------------------------------------------------- -- Phase: patch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: patch -------------------------------------------------------------------------------- ===> Patching for snakemake-5.4.2 -------------------------------------------------------------------------------- -- Phase: build-depends -------------------------------------------------------------------------------- ===> snakemake-5.4.2 depends on package: py36-setuptools>0 - not found ===> Installing existing package /packages/All/py36-setuptools-40.8.0.txz Installing py36-setuptools-40.8.0... `-- Installing python36-3.6.8... | `-- Installing expat-2.2.6_1... | `-- Extracting expat-2.2.6_1: .......... done | `-- Installing gettext-runtime-0.19.8.1_2... | | `-- Installing indexinfo-0.3.1... | | `-- Extracting indexinfo-0.3.1: .... done | `-- Extracting gettext-runtime-0.19.8.1_2: .......... done | `-- Installing libffi-3.2.1_3... | `-- Extracting libffi-3.2.1_3: .......... done | `-- Installing libressl-2.8.3... | `-- Extracting libressl-2.8.3: .......... done | `-- Installing ncurses-6.1.20190112... | `-- Extracting ncurses-6.1.20190112: .......... done | `-- Installing readline-7.0.5... | `-- Extracting readline-7.0.5: .......... done `-- Extracting python36-3.6.8: .......... done Extracting py36-setuptools-40.8.0: .......... done Message from python36-3.6.8: =========================================================================== Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: py36-gdbm databases/py-gdbm@py36 py36-sqlite3 databases/py-sqlite3@py36 py36-tkinter x11-toolkits/py-tkinter@py36 =========================================================================== Message from py36-setuptools-40.8.0: ******************************************************************* Only /usr/local/bin/easy_install-3.6 script has been installed since Python 3.6 is not the default Python version. ******************************************************************* ===> snakemake-5.4.2 depends on package: py36-setuptools>0 - found ===> Returning to build of snakemake-5.4.2 ===> snakemake-5.4.2 depends on file: /usr/local/bin/python3.6 - found -------------------------------------------------------------------------------- -- Phase: lib-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: configure -------------------------------------------------------------------------------- ===> Configuring for snakemake-5.4.2 running config -------------------------------------------------------------------------------- -- Phase: build -------------------------------------------------------------------------------- ===> Building for snakemake-5.4.2 running build running build_py creating build creating build/lib creating build/lib/snakemake copying snakemake/persistence.py -> build/lib/snakemake copying snakemake/common.py -> build/lib/snakemake copying snakemake/dag.py -> build/lib/snakemake copying snakemake/jobs.py -> build/lib/snakemake copying snakemake/cwl.py -> build/lib/snakemake copying snakemake/output_index.py -> build/lib/snakemake copying snakemake/wrapper.py -> build/lib/snakemake copying snakemake/io.py -> build/lib/snakemake copying snakemake/singularity.py -> build/lib/snakemake copying snakemake/executors.py -> build/lib/snakemake copying snakemake/script.py -> build/lib/snakemake copying snakemake/rules.py -> build/lib/snakemake copying snakemake/conda.py -> build/lib/snakemake copying snakemake/scheduler.py -> build/lib/snakemake copying snakemake/utils.py -> build/lib/snakemake copying snakemake/_version.py -> build/lib/snakemake copying snakemake/benchmark.py -> build/lib/snakemake copying snakemake/stats.py -> build/lib/snakemake copying snakemake/workflow.py -> build/lib/snakemake copying snakemake/logging.py -> build/lib/snakemake copying snakemake/__init__.py -> build/lib/snakemake copying snakemake/__main__.py -> build/lib/snakemake copying snakemake/checkpoints.py -> build/lib/snakemake copying snakemake/exceptions.py -> build/lib/snakemake copying snakemake/parser.py -> build/lib/snakemake copying snakemake/shell.py -> build/lib/snakemake copying snakemake/decorators.py -> build/lib/snakemake copying snakemake/gui.py -> build/lib/snakemake creating build/lib/snakemake/remote copying snakemake/remote/XRootD.py -> build/lib/snakemake/remote copying snakemake/remote/gridftp.py -> build/lib/snakemake/remote copying snakemake/remote/S3.py -> build/lib/snakemake/remote copying snakemake/remote/SFTP.py -> build/lib/snakemake/remote copying snakemake/remote/iRODS.py -> build/lib/snakemake/remote copying snakemake/remote/EGA.py -> build/lib/snakemake/remote copying snakemake/remote/NCBI.py -> build/lib/snakemake/remote copying snakemake/remote/S3Mocked.py -> build/lib/snakemake/remote copying snakemake/remote/gfal.py -> build/lib/snakemake/remote copying snakemake/remote/HTTP.py -> build/lib/snakemake/remote copying snakemake/remote/webdav.py -> build/lib/snakemake/remote copying snakemake/remote/__init__.py -> build/lib/snakemake/remote copying snakemake/remote/dropbox.py -> build/lib/snakemake/remote copying snakemake/remote/FTP.py -> build/lib/snakemake/remote copying snakemake/remote/GS.py -> build/lib/snakemake/remote creating build/lib/snakemake/report copying snakemake/report/__init__.py -> build/lib/snakemake/report copying snakemake/report.css -> build/lib/snakemake copying snakemake/jobscript.sh -> build/lib/snakemake copying snakemake/gui.html -> build/lib/snakemake copying snakemake/report/report.html -> build/lib/snakemake/report UPDATING build/lib/snakemake/_version.py set build/lib/snakemake/_version.py to '5.4.2' -------------------------------------------------------------------------------- -- Phase: run-depends -------------------------------------------------------------------------------- ===> snakemake-5.4.2 depends on package: py36-appdirs>0 - not found ===> Installing existing package /packages/All/py36-appdirs-1.4.3.txz Installing py36-appdirs-1.4.3... Extracting py36-appdirs-1.4.3: .......... done ===> snakemake-5.4.2 depends on package: py36-appdirs>0 - found ===> Returning to build of snakemake-5.4.2 ===> snakemake-5.4.2 depends on package: py36-configargparse>0 - not found ===> Installing existing package /packages/All/py36-configargparse-0.14.0.txz Installing py36-configargparse-0.14.0... Extracting py36-configargparse-0.14.0: .......... done ===> snakemake-5.4.2 depends on package: py36-configargparse>0 - found ===> Returning to build of snakemake-5.4.2 ===> snakemake-5.4.2 depends on package: py36-datrie>0 - not found ===> Installing existing package /packages/All/py36-datrie-0.7.1.txz Installing py36-datrie-0.7.1... Extracting py36-datrie-0.7.1: ........ done ===> snakemake-5.4.2 depends on package: py36-datrie>0 - found ===> Returning to build of snakemake-5.4.2 ===> snakemake-5.4.2 depends on package: py36-docutils>0 - not found ===> Installing existing package /packages/All/py36-docutils-0.14_3.txz Installing py36-docutils-0.14_3... Extracting py36-docutils-0.14_3: .......... done ===> snakemake-5.4.2 depends on package: py36-docutils>0 - found ===> Returning to build of snakemake-5.4.2 ===> snakemake-5.4.2 depends on package: py36-GitPython>0 - not found ===> Installing existing package /packages/All/py36-GitPython-2.1.11.txz Installing py36-GitPython-2.1.11... `-- Installing py36-ddt-1.2.1... `-- Extracting py36-ddt-1.2.1: .......... done `-- Installing py36-gitdb2-2.0.5... | `-- Installing py36-smmap2-2.0.5... | `-- Extracting py36-smmap2-2.0.5: .......... done `-- Extracting py36-gitdb2-2.0.5: .......... done Extracting py36-GitPython-2.1.11: .......... done ===> snakemake-5.4.2 depends on package: py36-GitPython>0 - found ===> Returning to build of snakemake-5.4.2 ===> snakemake-5.4.2 depends on package: py36-jsonschema>0 - not found ===> Installing existing package /packages/All/py36-jsonschema-2.6.0_1.txz Installing py36-jsonschema-2.6.0_1... Extracting py36-jsonschema-2.6.0_1: .......... done ===> snakemake-5.4.2 depends on package: py36-jsonschema>0 - found ===> Returning to build of snakemake-5.4.2 ===> snakemake-5.4.2 depends on package: py36-ratelimiter>0 - not found ===> Installing existing package /packages/All/py36-ratelimiter-1.2.0_1.txz Installing py36-ratelimiter-1.2.0_1... Extracting py36-ratelimiter-1.2.0_1: .......... done ===> snakemake-5.4.2 depends on package: py36-ratelimiter>0 - found ===> Returning to build of snakemake-5.4.2 ===> snakemake-5.4.2 depends on package: py36-requests>0 - not found ===> Installing existing package /packages/All/py36-requests-2.21.0.txz Installing py36-requests-2.21.0... `-- Installing py36-certifi-2018.11.29... `-- Extracting py36-certifi-2018.11.29: .......... done `-- Installing py36-chardet-3.0.4... `-- Extracting py36-chardet-3.0.4: .......... done `-- Installing py36-idna-2.7... `-- Extracting py36-idna-2.7: .......... done `-- Installing py36-urllib3-1.22,1... | `-- Installing py36-cryptography-2.3... | | `-- Installing py36-asn1crypto-0.22.0... | | `-- Extracting py36-asn1crypto-0.22.0: .......... done | | `-- Installing py36-cffi-1.11.5... | | `-- Installing py36-pycparser-2.18... | | `-- Extracting py36-pycparser-2.18: .......... done | | `-- Extracting py36-cffi-1.11.5: .......... done | | `-- Installing py36-six-1.12.0... | | `-- Extracting py36-six-1.12.0: .......... done | `-- Extracting py36-cryptography-2.3: .......... done | `-- Installing py36-openssl-18.0.0... | `-- Extracting py36-openssl-18.0.0: .......... done | `-- Installing py36-pysocks-1.6.8... | `-- Extracting py36-pysocks-1.6.8: .......... done `-- Extracting py36-urllib3-1.22,1: .......... done Extracting py36-requests-2.21.0: .......... done Message from py36-urllib3-1.22,1: Be careful, support of IPv6 is broken with PySocks 1.5.7. ===> snakemake-5.4.2 depends on package: py36-requests>0 - found ===> Returning to build of snakemake-5.4.2 ===> snakemake-5.4.2 depends on package: py36-wrapt>0 - not found ===> Installing existing package /packages/All/py36-wrapt-1.11.1.txz Installing py36-wrapt-1.11.1... Extracting py36-wrapt-1.11.1: .......... done ===> snakemake-5.4.2 depends on package: py36-wrapt>0 - found ===> Returning to build of snakemake-5.4.2 ===> snakemake-5.4.2 depends on package: py36-yaml>0 - not found ===> Installing existing package /packages/All/py36-yaml-3.13.txz Installing py36-yaml-3.13... Extracting py36-yaml-3.13: .......... done ===> snakemake-5.4.2 depends on package: py36-yaml>0 - found ===> Returning to build of snakemake-5.4.2 ===> snakemake-5.4.2 depends on package: py36-setuptools>0 - found ===> snakemake-5.4.2 depends on file: /usr/local/bin/python3.6 - found -------------------------------------------------------------------------------- -- Phase: stage -------------------------------------------------------------------------------- ===> Staging for snakemake-5.4.2 ===> Generating temporary packing list running install running build running build_py UPDATING build/lib/snakemake/_version.py set build/lib/snakemake/_version.py to '5.4.2' running install_lib creating /construction/misc/snakemake/stage/usr/local/lib/python3.6 creating /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages creating /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/shell.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/parser.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/scheduler.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/rules.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake creating /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/report copying build/lib/snakemake/report/__init__.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/report copying build/lib/snakemake/report/report.html -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/report copying build/lib/snakemake/wrapper.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/conda.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/stats.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/io.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/__main__.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/decorators.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/checkpoints.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake creating /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote copying build/lib/snakemake/remote/dropbox.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote copying build/lib/snakemake/remote/XRootD.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote copying build/lib/snakemake/remote/gfal.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote copying build/lib/snakemake/remote/HTTP.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote copying build/lib/snakemake/remote/S3.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote copying build/lib/snakemake/remote/iRODS.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote copying build/lib/snakemake/remote/FTP.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote copying build/lib/snakemake/remote/GS.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote copying build/lib/snakemake/remote/S3Mocked.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote copying build/lib/snakemake/remote/gridftp.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote copying build/lib/snakemake/remote/webdav.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote copying build/lib/snakemake/remote/NCBI.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote copying build/lib/snakemake/remote/SFTP.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote copying build/lib/snakemake/remote/EGA.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote copying build/lib/snakemake/remote/__init__.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote copying build/lib/snakemake/_version.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/jobscript.sh -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/report.css -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/workflow.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/benchmark.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/common.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/logging.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/cwl.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/script.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/executors.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/output_index.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/exceptions.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/__init__.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/utils.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/jobs.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/persistence.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/singularity.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/gui.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/gui.html -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake copying build/lib/snakemake/dag.py -> /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/shell.py to shell.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/parser.py to parser.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/scheduler.py to scheduler.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/rules.py to rules.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/report/__init__.py to __init__.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/wrapper.py to wrapper.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/conda.py to conda.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/stats.py to stats.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/io.py to io.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/__main__.py to __main__.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/decorators.py to decorators.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/checkpoints.py to checkpoints.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote/dropbox.py to dropbox.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote/XRootD.py to XRootD.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote/gfal.py to gfal.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote/HTTP.py to HTTP.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote/S3.py to S3.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote/iRODS.py to iRODS.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote/FTP.py to FTP.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote/GS.py to GS.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote/S3Mocked.py to S3Mocked.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote/gridftp.py to gridftp.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote/webdav.py to webdav.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote/NCBI.py to NCBI.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote/SFTP.py to SFTP.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote/EGA.py to EGA.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/remote/__init__.py to __init__.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/_version.py to _version.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/workflow.py to workflow.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/benchmark.py to benchmark.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/common.py to common.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/logging.py to logging.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/cwl.py to cwl.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/script.py to script.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/executors.py to executors.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/output_index.py to output_index.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/exceptions.py to exceptions.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/__init__.py to __init__.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/utils.py to utils.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/jobs.py to jobs.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/persistence.py to persistence.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/singularity.py to singularity.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/gui.py to gui.cpython-36.pyc byte-compiling /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake/dag.py to dag.cpython-36.pyc writing byte-compilation script '/tmp/tmp812a5uis.py' /usr/local/bin/python3.6 /tmp/tmp812a5uis.py removing /tmp/tmp812a5uis.py running install_egg_info running egg_info writing snakemake.egg-info/PKG-INFO writing dependency_links to snakemake.egg-info/dependency_links.txt writing entry points to snakemake.egg-info/entry_points.txt writing requirements to snakemake.egg-info/requires.txt writing top-level names to snakemake.egg-info/top_level.txt reading manifest file 'snakemake.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' writing manifest file 'snakemake.egg-info/SOURCES.txt' Copying snakemake.egg-info to /construction/misc/snakemake/stage/usr/local/lib/python3.6/site-packages/snakemake-5.4.2-py3.6.egg-info running install_scripts Installing snakemake script to /construction/misc/snakemake/stage/usr/local/bin Installing snakemake-bash-completion script to /construction/misc/snakemake/stage/usr/local/bin writing list of installed files to '/construction/misc/snakemake/.PLIST.pymodtmp' ====> Compressing man pages (compress-man) -------------------------------------------------------------------------------- -- Phase: package -------------------------------------------------------------------------------- ===> Building package for snakemake-5.4.2 file sizes/checksums [148]: .. done packing files [148]: .. done packing directories [0]: . done -------------------------------------------------- -- Termination -------------------------------------------------- Finished: Friday, 8 MAR 2019 at 00:48:41 UTC Duration: 00:00:24